Stein Aerts

Stein Aerts

Stein Aerts

Scientific director VIB.AI
Head of the Lab of Computational Biology, since 2009

KU Leuven full professor, since 2017
VIB group leader, since 2016
Postdoc at VIB and IBDML, 2005-2009
PhD in Bioinformatics at ESAT, KU Leuven, 2004
 

Short bio

Stein Aerts is Scientific Director of VIB.AI, the VIB Center for AI & Computational Biology. He is also VIB group leader, and professor at the KU Leuven Department of Human Genetics.

Stein has a multidisciplinary background in both bio-engineering and computer science. During his PhD he was trained in bioinformatics, and during his Postdoc he worked on the genomics of gene regulation in Drosophila. He now heads the Laboratory of Computational Biology, with a research focus on deciphering the genomic regulatory code, using a combination of single-cell, machine-learning, and high-throughput experimental approaches.

His recent scientific contributions include new bioinformatics methods for the analysis of single-cell gene regulatory networks, namely SCENIC and cisTopic; new experimental assays for single-cell ATAC-seq (HyDrop) and for massively parallel enhancer reporter assays; deep learning implementations for enhancer modelling (DeepMEL, DeepFlyBrain, DeepLiver); and methods for AI-driven design of synthetic enhancers for gene therapy.

Stein is EMBO member, obtained Consolidator and Advanced ERC grants, and has been awarded the 2017 Prize for Bioinformatics and Computational Science from the Biotech Fund and the 2016 Astrazeneca Foundation Award Bioinformatics. He co-founded the Fly Cell Atlas consortium.

Full CV

  • Scientific Director VIB.AI (2023-current)

  • Gewoon hoogleraar (Full Professor) University of Leuven (2021-current)

  • Hoogleraar (Full Professor) University of Leuven (2017-2021)
  • VIB Group Leader (2016-current)
  • Associate Professor University of Leuven (2014-2017)
  • Assistant Professor University of Leuven (2009-2014)
  • Postdoc at VIB, Bassem Hassan lab (2005-2009), Leuven
  • Visiting postdoc at Developmental Biology Institute of Marseille, Luminy (IBDML), Marseille, France (2006), with Denis Thieffry and Carl Herrmann
  • PhD Bioinformatics, School of Engineering (ESAT), University of Leuven (2001-2004)
  • Bioinformatician, Data4s Future Technologies NV (2000-2001)
  • Assistant IT Project Leader Janssen Pharmaceutica, Johnson&Johnson (1999-2000)
  • Visiting undergraduate researcher at the Center for Genomic Sciences, Cuernavaca, Mexico (Jul-Nov 1998), with Esperanza Martínez-Romero.
  • PhD in Engineering (Bioinformatics), Department of Electrical Engineering ESAT-SCD, University of Leuven (2004)
  • Advanced Studies in Applied Computer Science, University of Brussels (2002)
  • Master in Bioscience Engineering (Molecular Biology), University of Leuven (1999)
  • Regulatory Genomics & Gene regulatory networks
  • Single-cell and microfluidics technologies
  • Next-generation sequencing
  • Machine learning
  • Drosophila genomics
  • Regulatory heterogeneity in cancer
  • Bioinformatics
  • ERC Advanced grant 2022
  • EMBO member since 2022
  • Francqui Chair at ULB 2022
  • ERC Consolidator grant 2017
  • Prize for Bioinformatics and Computational Science 2017 from the Biotech Fund
  • Astrazeneca Foundation Award Bioinformatics 2016
  • PhD with Greatest Distinction and Congratulations from the Jury (2004)
  • FWO Postdoctoral Fellowship (2005 & 2008)
  • HFSP Young Investigator Grant Awardee (2010)
  • VIB Conference “The Brain Mosaic”, Leuven, 2024
  • VIB Conference “Applied Bioinformatics in Life Sciences”, Leuven, 2024
  • 3rd Fly Cell Atlas meeting, Berlin, April 2020
  • LifeTime-VIB conference “Emerging technologies in single-cell sequencing”, 2020
  • VIB Conference “The Brain Mosaic”, Leuven, 2019
  • Workshop “Single cell approaches in Drosophila research” at EDRC 2019
  • 2nd Fly Cell Atlas meeting, Janelia Farm, March 2019
  • 1st Fly Cell Atlas meeting, Leuven, December 2018
  • Program & steering committee ISMB RegGen COSI 2014-2019
  • Scientific director of VIB.AI
  • Member of the Leuven AI Institute
  • Member of the Leuven Single-cell Omics Institute
  • Board Member of the KULeuven Center for Human Genetics
  • Board Member of the KULeuven Genomics Core
  • Member of the Steering committee of the Supercomputer Center (VSC)
  • Member of the Educational Committee of the BSs & MSc Biomed. Sciences (2009-2016)
  • Member of the Educational Committee of the MSc Bioinformatics
  • Co-founder of the Fly Cell Atlas consortium (https://flycellatlas.org)
  • Partner in the LifeTime Consortium (FET Flagship CSA)
  • Invited Speaker @ DIAH Conference, Ghent, 8th Feb 2024
  • Invited speaker @ PRBB-CRG Scientific Session, 26th Jan 2024
  • Invited talk @ ERGA BioGenome Analysis & Applications Seminar, 24th Jan 2024 (virtual)
  • Invited talk @ NKI Seminar, Amsterdam, 8 Dec 2023
  • Invited speaker @ Cold Spring Harbor Asia meeting on Systems Biology of Gene Regulation and Genome Editing, Suzhou, China, 23-27 Oct 2023
  • Invited speaker @ Single Cell Genomics 2023, Engelberg, Switzerland, 9-11 Oct 2023
  • Invited speaker @ Broad Institute’s Stanley symposium, 19th Sept 2023
  • Invited speaker @ Kipoi Seminars, 5th July 2023 (virtual)
  • Invited speaker @ 16th Berlin Summer Meeting, MDC, 6-7 Sept 
  • Invited speaker @ NWO Life, Egmond aan Zee, Netherlands, 25th May 2023
  • Invited speaker @ Biodiversity Cell Atlas Meeting, CRG Barcelona, 14-15 May 2023
  • Invited speaker @ Gene Regulatory Networks meeting, Oxford, 12-14 April 2023
  • Invited speaker at the 18th Course on Epigenetics, organised by Institut Curie, 24th March, 2023
  • Invited talk @ IMP Seminar, Vienna, 7-10 Feb 2023
  • Invited talk, Montpellier Seminar, 10th Jan 2023
  • Invited seminar @ Curie institute, 7th Dec 2022
  • Invited speaker @ EMBO Workshop From functional genomics to systems biology, 18th Nov 2022
  • Invited talk at EMBO members’ meeting 2022, 26-28 Oct 2022
  • Invited speaker @ Single Cell Genomics 2022, Utrecht, The Netherlands, 17-19 Oct 2022
  • Invited talk @ University of Basel and the Swiss Institute of Bioinformatics, 19th Sept 2022
  • Invited speaker @ SCOG Single Cell Genomics meets Data Science, 12th Sept 2022
  • Invited speaker @ Single Cell Technologies and analysis Course by Wellcome Trust / Sanger, 22 July 2022
  • Invited speaker @ Single Cell Biology conference Wellcome Trust / Sanger, 6-8 June 2022 
  • Invited speaker @ UCSD, 11th May 2022 (virtual)
  • Invited speaker @ VIB Applied Bioinformatics in Life Sciences (4th edition), Mar 2022
  • Invited speaker @ Symposium Medica “De Arts van Morgen”, 19th March 2022
  • Invited speaker Bordeaux Inserm single-cell workshop 1-3 dec 2021
  • Invited speaker at Oz single-cell, Brisbane, 2021 (virtual)
  • Seminar @ Chromatin club, San Diego, 24th Sep 2021 (virtual)
  • Seminar @ Genentech, 9th Sep 2021 (virtual)
  • Invited talk @ ESHG, 28th Aug 2021 (virtual)
  • Single-cell course Sanger Centre, July 2021 (virtual)
  • Seminar @ Toulouse University, 25th June 2021 (virtual)
  • Computational biology and bioinformatics (BOB) seminar, University of Warsaw, 26th May 2021 (virtual)
  • Invited speaker and discussion leader at CSHL Conference Biology of Genomes, May 2021 (virtual)
  • Invited speaker at the EMBL Conference on the identity and evolution of cell types, May 2021 (virtual)
  • Keynote COS Heidelberg 19th May 2021 (virtual)
  • Seminar at Bordet Institute, 12th Feb 2021 (virtual)
  • Invited speaker at the ENS Paris single-cell workshop, 10th Feb 2021 (virtual)
  • Invited speaker at Montpellier Omics Day 9th Feb 2021 (virtual)
  • Seminar at UNAM, Mexico 29th June 2020 (virtual)
  • Virtual seminar at the International Laboratory of Human Genome (LIIGH), UNAM, Mexico, 29th June 2020
  • Virtual seminar at University of Glasgow, 11th June 2020
  • Invited speaker at New York University (NYU) Abu Dhabi, Genomics symposium, 19-21st Feb 2020
  • Seminar at Champalimaud, Lisbon, 9th Jan 2020
  • Seminar at Manchester University, 12th Dec 2019
  • Invited speaker at the CRG Symposium Barcelona, 14th Nov 2019
  • Invited speaker at SCOG Symposium, Advances in Single-cell Epigenomics, Saarbrucken, 4th Nov 2019
  • Invited speaker at U-CRC Cancer Symposium ULB, 25th Oct 2019
  • Invited speaker at the VIB Conference Brain Mosaic II, Leuven, Oct 2019
  • EDRC Lausanne, plenary speaker, Sep 2019
  • Sanger Center, Single-cell course, 24th July 2019
  • Keynote at ISMB, RegGen COSI, 22-23 July 2019
  • Keynote 13th Interdisciplinary Graduate School Meeting, Münster, Germany, 25th April 2019
  • EMBO Conference ‘Identity and Evolution of Cell Types, 15-18 May 2019, Heidelberg
  • Seminar at Stem Cell Institute, Leuven, 20th May 2019
  • Keynote at the RSG Bioinformatics student symposium, Leuven, 3 May 2019
  • Congres of the Biomedical Sciences, Leuven, 2nd April 2019
  • Drosophila meeting, Dallas, 27-31 March 2019
  • 2nd Fly Cell Atlas meeting, Janelia Farm, 24-26 March 2019
  • Seminar at Yale University, 28th Mar 2019
  • Santa Fe workshop “Operationalizing the cell type”, 10-13 Mar 2019
  • EDRC Lausanne, plenary speaker, Sep 2019
  • Sanger Center, Single-cell course, 24th July 2019
  • Keynote at ISMB, RegGen COSI, 22-23 July 2019
  • Keynote 13th Interdisciplinary Graduate School Meeting, Münster, Germany, 25th April 2019
  • EMBO Conference ‘Identity and Evolution of Cell Types, 15-18 May 2019, Heidelberg
  • Seminar at Stem Cell Institute, Leuven, 20th May 2019
  • Keynote at the RSG Bioinformatics student symposium, Leuven, 3 May 2019
  • Congres of the Biomedical Sciences, Leuven, 2nd April 2019
  • Drosophila meeting, Dallas, 27-31 March 2019
  • 2nd Fly Cell Atlas meeting, Janelia Farm, 24-26 March 2019
  • LifeTime presentation at the Aviesan meeting, Brussels, 22nd February 2019
  • Seminar at Pasteur Institute, 15th February 2019
  • Seminar at Humboldt University, Berlin, 24th January 2019
  • FWO Kennismakers, 90 Years FWO, Brussels, 14th December 2018
  • Core Facilities, Marie Curie Institute, Paris, 25th October 2018
  • Opening of the Cancer Program, Doctoral School KU Leuven, 21 October 2018
  • Systems Biology Workshop, Bordeaux, 15-16 October 2018
  • Single-cell meeting Helsinki, 20th September 2018
  • New York Genome Center, JLABS, 28th September 2018
  • Sanger Center, Single-cell course, 24th July 2018
  • Dutch Neuroscience Conference, Lunteren, The Netherlands, 7th June 2018
  • Dutch Bioinformatics Conference, Lunteren, The Netherlands, 16th May 2018
  • Retreat of the VIB Center for Cancer Biology, 15th May 2018
  • Seminar at Crick Institute, 29th March 2018
  • VIB Conference Applied Bioinformatics in Life Sciences, 8-9 March 2018, Leuven, Belgium
  • Fly Cell Atlas meeting, Leuven, 8th December 2017
  • German Bioinformatics Conference, Bielefeld, 24-25 October 2017
  • Seminar at EPFL Lausanne, 2nd July 2017
  • VIB Seminar, Zandhoven, The Netherlands, April 2017
  • COST meeting, Malta, 2-4 April 2017
  • Seminar at the Institut Curie, 22nd Feb 2017
  • Seminar at Novartis, Basel, 1st December 2016
  • Keynote presentation, JOBIM Lyon 28-30 June 2016
  • Melanoma meeting, Varenna Italy, 9th June 2016
  • Seminar at Imperial College London, 4th Feb 2016
  • “Neuroblastoma in Berlin”, 14th December 2015
  • Keynote presentation at the European Cancer Epigenetics Conference, 12-13 Nov 2015, Maastricht, The Netherlands
  • Invited speaker at IMEC Nanotechnology for Health, 23th Sep 2015, Leuven, Belgium
  • Invited speaker at the BASF Bioscience Workshop, 28th Sep 2015, Ghent, Belgium
  • Seminar at the University of Copenhagen, 4th June 2015 (Sandelin lab).
  • Keynote Speaker at the Annual Symposium of From Nucleotides to Networks (N2N), UGent, 21st May 2015.
  • 4th JEDI meeting, Carry-le-Rouet, Marseille, 9-12/9/2014
  • Colloquium at TU Delft, Faculty of Electrical Engineering, Mathematics and Computer Science, 24th June 2014
  • Invited speaker SocBIN Bioinformatics Conference, Oslo, 12th June 2014.
  • Seminar at the Interuniversity Institute of Bioinformatics IB2, ULB Brussels, 14th March 2014.
  • Seminar at ErasmusMC, Department of Cell Biology, Rotterdam, 31st Oct 2013.
  • Seminar at the IMP, Vienna, 23rd Oct 2013 (A. Stark lab).
  • Seminar at the Institute of Interdisciplinary Research (IRIBHM), ULB Brussels, 19th Sep 2014 “Identification of master regulators and cis-regulatory interactions in human and - Drosophila gene networks”
  • Keynote presentation at the Regulatory Genomics Special Interest Group (RegGenSIG) at ISMB 2013, July 20, 2013, Berlin. “ Motif-based identification of master regulators and direct - TF-target interactions in human and Drosophila gene networks”.
  • Invited speaker at the International Conference on Genomics, ICG-Europe, 26-28 June 2013, Ghent, Belgium, “Probing into leukemia genomes, transcriptomes, and regulatory networks”.
  • Seminar at the Bogazici University, Istanbul, Dept. Molecular Biology and Genetics, 10th May 2013.
  • Invited speaker at the 1st International Gene-Arel Molecular Biology and Genetics Congress, “Bioinformatics applications in cancer (regulatory) genomics”, Arel University, Istanbul, 11-12 May 2013.
  • Genetics Seminar Series, Department of Genetics, University of Cambridge, 24th April 2013.
  • Seminar at the CABD, University of Sevilla, 24th January 2013.
  • Seminar at the Oxford Fly Club, Oxford University, Stephen Goodwin lab, 24th October 2012.
  • Seminar at Ghent University, 16th October 2012.
  • Invited speaker at ECCB 2012, Basel, Switzerland, Sep 9th 2012. WS6 “Detecting transcription factor binding sites with chip-seq data and predicting damaging cis-regulatory variations”.
  • Invited speaker at the ESF Conference on Systems Biology of Drosophila Development, 22-25 May 2012, Pultusk, Poland. “Regulator, target, and enhancer discoveries in Drosophila”.
  • NGS User Meeting, 26 Apr 2012, Leuven “Gene regulatory networks in development and cancer”
  • BGI-VIB Next-Generation Sequencing Meeting, 15th Feb 2012, Leuven. “Exome sequencing in Acute Lymphoblastic Leukemia”
  • B-IT Lecture Series in “Computational Methods in Systems Biology” April 07, 2011, Bonn, Germany. “Mapping gene regulatory networks in Drosophila species by transcriptomics and cis-regulatory sequence analysis”.
  • Lecture at the Ecole Normale Superieure, Paris, 23th March 2011. “Regulatory Genomics”.
  • European Conference on Computational Biology ECCB 2010, 26-29 September 2010, Tutorial “Current methods and applications for regulatory sequence analysis”
  • Invited speaker at the Daphnia Genomics Consortium Meeting 2010, BioSCENTer Symposium, Leuven 26 March 2010. “A transcriptional regulatory network for retinal - differentiationinDrosophila differentiation in Drosophila”
  • Seminar at the University of Freiburg, Germany (SFB 592 - Signalmechanismen in Embryogenese und Organogenese), 5th June 2009. “A transcriptional regulatory network for retinal differentiation in Drosophila”.
  • 22th French Drosophila Conference, Carry-le-Rouet, 22-25 Oct 2008. “Transcriptional regulation of retinal differentiation in Drosophila”
  • Seminar at the University of Trondheim, Norway, September 11 2008. “Identification of transcriptional targets in the regulatory network of Drosophila eye development”
  • Seminar at the “Centre de Biologie du Developpement” (CNRS, Toulouse), 14 December 2007. “Computational Identification of Regulatory Interactions in Drosophila”
  • Keynote speaker at UT-ORNL-KBRIN Bioinformatics Summit, April 13-15 2007, Tennessee US. “Computational Identification of Transcriptional Targets Across Multiple Genomes”
  • Invited speaker at the RegCreative Jamboree 29⁄11-1⁄12 2006. “Automatic generation of the Oreganno queue”.
  • Seminar at Laboratoire de Genetique et Physiologie du Developpement CNRS - IBDML (Institut de Biologie du Developpement de Marseille-Luminy), 13 April 2006, “Computational discovery of cis-regulatory modules”
  • Seminar at Max-Planck Institute for Molecular Genetics, 30 Nov 2004, “Computational discovery of cis-regulatory modules in animal genomes”.
  • Invited speaker at the 1st VIB MicroArray Users Group Meeting, 3/12/2001, Leuven, Belgium. MicroArray data analysis progress
  • Invited speaker at the 2nd VIB MicroArray Users Group Meeting, 22/11/2002, Leuven, Belgium. Gene Regulation Bioinformatics
  • Invited speaker at the opening of the DEA/DES Program of Bioinformatics, VUB, 24/09/04: “Methods and strategies in post-genomic gene regulation bioinformatics.”
  • Single-cell genomics conference, Stockholm, 24-27 Oct 2019
  • CSHL Meeting “Systems Biology: Global Regulation of Gene Expression”, 20-23 March 2018
  • Single-Cell Genomics, Tel Aviv, Israel, 15-19 October 2017
  • Human Cell Atlas, workshop on model organisms, Berlin, 14th November 2017
  • Janelia Conference on neuronal identity, 7-11 May 2017
  • CSHL Meeting “Systems Biology: Global Regulation of Gene Expression”, 15-19 March 2016
  • EMBO Conference “Cancer Genomics”, EMBL Heidelberg, 3-5 Nov 2013
  • EMBO Conference “From Functional Genomics to Systems Biology”, EMBL Heidelberg, 17-20/11/12
  • 5th Benelux next-generation sequencing meeting, 20 Jun 2012, Leuven
  • RECOMB Regulatory Genomics, Barcelona, 18-19 Oct 2011
  • RECOMB Regulatory Genomics, Boston BROAD/MIT, 2-6 Dec 2009
  • 50th Drosophila Research Conference, Chicago, 4-8 March 2009
  • EMBO Conference: From Functional Genomics to Systems Biology, Heidelberg, 15-18 Nov 2008
  • The 20th European Drosophila Research Conference (EDRC) 2007, Vienna. Title: “Fine-tuning enhancer models to identify transcriptional targets across multiple genomes”.
  • Young Scientist Day (The International Francqui Chair 2005-2006 - The Belgian Society for Biochemistry and Molecular Biology), 18 Dec 2006, Gembloux, Belgium. Title: “Fine-tuning enhancer models to identify transcriptional targets across multiple genomes”.
  • 11th European Drosophila Neurobiology Conference, 2-6 Sept 2006, Leuven, Belgium. Title: “Predicting Atonal target genes by motif discovery”.
  • The annual Belgian-Dutch FlyMeeting, 25 November 2005, Groningen, Netherlands. “Bioinformatics: computational prioritization of fly genes using genomic data fusion.”
  • European Conference on Computational Biology (ECCB) 2003, Paris. Computational detection of cis-regulatory modules
  • 4th Belgian Bioinformatics Conference, 23 April 2004, Brussels, Belgium. Computational discovery of cis-regulatory modules in animal genomes.
  • 2nd Belgian Bioinformatics Conference (BBC), 12/04/2002, Namur, Belgium. Integration of microarrays, Gene Ontology and Sequence Analysis: a Case Study
  • 15th IEEE Symposium on Computer Based Medical Systems (CBMS), Maribor, Slovenia 2002. Web based data collection for ovarian cancer: a case study
  • CSHL Meeting on Systems Biology: Global regulation of gene expression, Jan28 - Feb1 2015, Puerto Rico.
  • Melanoma Congress SMR, 13-16 Nov 2014, Zurich “Distinct regulatory landscapes underlie phenotypic differences between the invasive and proliferative melanoma cell states”.
  • CSHL Meeting on Systems Biology: Global regulation of gene expression, Mar 20-24 2012. “Integrative CRM prediction approaches uncover new direct target genes of retinal determination - factors in fly and of cancer-related transcription factors in human.”
  • CSHL Meeting on Systems Biology: Global regulation of gene expression, Mar 27-30 2008. “Practical identification of regulatory interactions in Drosophila transcriptional networks”
  • Janelia Farm meeting “Expanding the genetic toolkit for Drosophila”, Oct 7-10 2007. “Fine-tuning enhancer models to predict transcriptional targets across mulitple genomes”
  • CSHL Meeting on Systems Biology: Global regulation of gene expression, 29⁄3-4⁄1 2007. “Fine-tuning enhancer models to predict transcriptional targets across mulitple genomes”
  • CSHL Meeting on Systems Biology: Global regulation of gene expression, March 17-20 2005. “TOUCAN Release 2 An All-inclusive Open Source Workbench for Regulatory Sequence Analysis”
  • CSHL Meeting on Systems Biology: Global regulation of gene expression, March 17-20 2005. “Computational Candidate Gene Prioritization by Genomic Data Fusion”
  • ISMB/ECCB 2004, July 31 - August 4 2004, Glasgow UK. Computational Gene Prioritisation.
  • CSHL Meeting on Systems Biology: Genomic Approaches to Transcriptional Regulation, March 4 - 7, 2004, Cold Spring Harbor Laboratory, New York. Computational detection of combinations - of transcription factor binding sites within conserved non-coding regions.
  • 3rd Belgian Bioinformatics Conference (BBC), 12/4/2003, Leuven, Belgium. Tools and algorithms for cis-regulatory sequence analysis in higher eukaryotes
  • K.U.Leuven Faculty of Engineering PhD Symposium, December 11, 2002 Leuven, Belgium. Poster : TOUCAN: Deciphering Cis-Regulatory Logic of Coregulated Genes
  • International Workshop in Bioinformatics: “Knowledge Discovery meets Drug Discovery”, 22-23.10.2002, Leuven, Belgium (Held in conjunction with BNAIC 2002). TOUCAN: Deciphering Cis-Regulatory Logic of Coregulated Genes
  • European Conference on Computational Biology (ECCB), 7-9 October 2002, Saarbrucken, Germany. Toucan: a Workbench for Regulatory Sequence Analysis.
  • Bioinformatics Conference, 2002, Bergen, Norway. Integration of microarrays, Gene Ontology and Sequence Analysis: Case Study.
  • MGED III, Stanford University School of Medicine, March 29-31, 2001. Microarrays in disease management
  • See Teaching
  • Francqui Chair ULB 2022
  • Biomedical Sources of Information (BA2 Biomedical Sciences, 35hr)
  • Bio-informatics: Structural and Comparative Genomics (MA1, Master in Bioinformatics, 9hr)
  • Bioinformatics and Systems Biology: Sequence, StructureÊ& Evolution (MA1 Biomedical Sciences, 9hr)
  • Bioinformatics and Systems Biology: Expression, Regulation and Networks (MA2 Biomedical Sciences, 13hr)
  • Advanced Studies in Genetics (MA2 Biomedical Sciences, 2hr)
  • 2002-2008: Teaching assistant and Guest Lecturer (KULeuven, UGent)

As promotor

  • 2023-: Sam Dieltiens
  • 2023-: Niklas Kempynck
  • 2023-: Vasileios Konstantakos
  • 2022-: Darina Abaffyová
  • 2022-: Alexandra Pančíková
  • 2022-: Eren Can Ekşi
  • 2022-: Hannah Dickmänken
  • 2022-: Cas Blaauw
  • 2020-: Seppe De Winter

  • 2019-: Florian De Rop
  • 2018-2020: Dafni Papasokrati
  • 2018-2023: Ibrahim Taskiran
  • 2017-2023: Carmen Bravo
  • 2017-2022: Jasper Janssens
  • 2017-2018: Duygu Koldere
  • 2016-2020: Liesbeth Minnoye
  • 2013-2021: Kristofer Davie
  • 2012-2018: Jelle Jacobs
  • 2012-2018: Hana Imrichova
  • 2012-2016: Dmitry Svetlichnyy
  • 2011-2015: Annelien Verfaillie
  • 2010-2012,2018-2019: Bram Van de Sande
  • 2009-2014: Marina Naval Sanchez
  • 2009-2013: Zeynep Kalender Atak

As co-promotor

  • Danie Daaboul 2021-
  • Emir Erkol 2020-
  • 2011-2014: Jonathan Crowther
  • 2010-2022: Katina Spanier
  • 2010-2017: Julio Finalet
  • 2009-2017: Ruben Dries

Member of the PhD committee / jury

  • Nicky Thrupp, 15 Nov 2023, KU Leuven
  • Sarah Geurs, 18th Oct 2023, KU Leuven
  • Koen Theunis, 12th Dec 2023, KU Leuven
  • Vitalii Kleshchevnikov, 15th Sep 2023, Sanger Center UK
  • Ashley Lu, 27th June 2023, KU Leuven
  • Ruth Styfhals, 26th June 2023, KU Leuven
  • Tania Aerts, 12th June 2023, KU Leuven
  • Zhihan Xu, June 2023, Wellcome-MRC
  • Dylan de vries, 14 Dec 2022, Universiteit Groningen
  • Felix Raimundo, 7 Dec 2022, Curie Institute
  • Katrien Neyerinck, 10 Dec 2021, KU Leuven
  • Jonathan Desmet, 7 Dec 2021, KU Leuven
  • Abbas Jariani, 5 April 2019, KU Leuven
  • Aslihan Karabacak, 24th January 2019, Humboldt University, Berlin
  • Aljosja Rogiers, 20th June 2018, KU Leuven
  • 2018 Claudio Reggiani, ULB Brussels
  • 2018 Martin Bizet, ULB Brussels
  • 9th Nov 2017 Emre Etioglu, KU Leuven
  • 21st Sep 2017 Xiaoyan Ma, Univ. Cambridge
  • 13th July 2017 Jaime Castro, Marseille
  • 5th July 2017 Julio Finalet, KU Leuven
  • 27th June 2017 Michael Olvedy, KU Leuven
  • 16th June 2017 Ana Marta Neto, Porto
  • 10th March 2017 Evelien Mathieu, IMEC & KU Leuven
  • 4th Jan 2017 Ruben Dries, KU Leuven & Univ. Rotterdam
  • 16th Jan 2017 Simon Weinberger, KU Leuven
  • 25th Nov 2016 Bob Blasdel, KU Leuven
  • 18 May 2016: Ryo Sakay, KU Leuven
  • 5th February 2016: Ignasi Morán Castany, Imperial College London
  • 20 Nov 2015: Maya Jawdat Nicolas, KU Leuven (chair)
  • 19 Nov 2015: Matthieu Moisse, KU Leuven
  • 30 Sep 2015: P. J. Volders, UGent
  • 25 March 2015: Ken Heyndrickx, UGent
  • 3 March 2015: Niels van der Aa, KU Leuven
  • 23 Jan 2015: Ana-Clara Fernandes, KU Leuven
  • 2015: Karin van den Hurk, University of Maastricht, The Netherlands
  • 2015: Beril Lilje, Copenhagen University, Denmark
  • 9 April 2014: Annelies Fieuw, UGent
  • 2014: Philge Philip, Umea University, Sweden
  • 27 Sep 2013: Mehreteab Aregay, KU Leuven
  • 2013: Jorge Omar Yanez Cuna, IMP Vienna, Austria
  • 2013: Greet Baets, SWITCH Lab, VIB & University of Leuven
  • 2012: Charles Girardot (EMBL & ENS), Paris, France
  • 2012: Marc Vaudel, Ghent University, Belgium
  • 2010: Ingrid Arijs, University of Leuven
  • 2008: Geir Kjetil Sandve, Univ. Trondheim, Norway
  • 2023-: Lars Borm
  • 2021-: Gabriele Partel
  • 2021-: Olga Sigalova
  • 2021-: Nikolai Hecker
  • 2020-: Swann Floc’hlay
  • 2017-: David Mauduit
  • 2016-2022: Jasper Wouters
  • 2015-: Sara Aibar
  • 2020-2022: Jonas Demeulemeester
  • 2021-2021: Nikoleta Psatha
  • 2020-2021: Joy Ismail
  • 2018-2021: Christopher Flerin
  • 2014-2019: Zeynep Kalender Atak
  • 2012-2016: Delphine Potier
  • 2011-2014: Rekin’s Janky
  • 2021-2022: Ho Sing Fred Lo (Bioinformatics)
  • 2021-2022: Danira Abaffyova (Bioinformatics)
  • 2021-2022: Adriana Samareanu (Bioinformatics)
  • 2021-2022: Ivana Janickova (Bioinformatics)
  • 2021-2022: Michael Goedertier (Bioinformatics)
  • 2021-2022: Alexandra Pancikova (Bioinformatics)
  • 2021-2022: Phuong Thao Tran (Bioinformatics)
  • 2020-2021: Virginia Tsiouri (Biophysics)
  • 2020-2021: Mehmet Erim Erdal (Bioinformatics)
  • 2020-2021: Danie Daaboul (Bioinformatics)
  • 2020-2021: Sonny Achten (AI)
  • 2020-2021: Evangelia Balini (AI)
  • 2019-2020: Ajay Sundaresan (Bioinformatics)
  • 2019-2020: Austin George (Bioinformatics)
  • 2019-2020: Seppe Dewinter (Biomedical Sciences)
  • 2018-2019: Florian De Rop (Bioscience Engineering)
  • 2018-2019: Linde van Aerschot (Biomedical Sciences)
  • 2018-2019: Mariska Reniers (Biomedical Sciences)
  • 2017-2018: Dafni Papasokrati (Bioinformatics)
  • 2017-2018: Quinten Lauwers (Computer Science)
  • 2016-2017: Jasper Janssens (Bioscience Engineering)
  • 2016-2017: Carmen Bravo (Bioinformatics)
  • 2015-2016: Nick Narinx (Biomedical Sciences)
  • 2015-2016: Akshaya Ramakrishnan (Bioinformatics)
  • 2015-2016: Camilo Andres (Bioinformatics)
  • 2015-2016: Maria Escala Garcia (Bioinformatics)
  • 2014-2015: Maryam Omrani (Bioinformatics)
  • 2013-2014: Wouter Geens (Biomedical Sciences)
  • 2012-2013: George Arun Devasia (predoc)
  • 2010-2011: Matthias Maerivoet (Bioinformatics)
  • 2010-2011: Gert Hulselmans (Biomedical Sciences)
  • 2005-2006: Joris Grouwels (Engineering)
  • 2003-2004: Peter Van Loo (Engineering)
  • 2002-2003: Peter Van Loo (Bioscience Engineering)
  • Koen Herten (2012)
  • Jonas Meuleman (2013)

For an up-to-date overview, see GoogleScholar, ORCiD, or the Aerts lab website.

Referee for Bioinformatics, Genome Research, Nucleic Acids Research, Nature, Cell, eLife and many others
Full overview

  • SAB/review panel member @ CRG, Barcelona, Nov 2023
  • SAB/review panel member @ MDC Berlin, 31 May-2nd June 2023
  • ERC reviewing panel, Integrative Biology: from Genes and Genomes to System
  • Clusters of Excellence, University of Heidelberg, Oct-Nov 2021 (virtual panel meeting)
  • EMBL Review Panel, Structural and Computational unit, 2-4 May 2021
  • SAB/review panel member for Vidal Virchow 2.0 open call for cell-based medicine project ideas
  • SAB/review panel member @ EMBL Unit
  • Frequently featured in (inter)national press, recent examples include:
    • VRT ‘Belgian scientists create synthetic DNA using artificial intelligence’, 12th Dec 2023
    • KU Leuven magazine Sonar, Sept 2023
  • Eos podcasts on fruit fly research and the power of bioinformatics
  • Speaker at stakeholder events and patient meetings, recent examples include
    • Invited speaker @ KU Leuven Open Science day - 24th Oct 2022
    • Invited talk at HERAN Health Tech Fund’s Investor Day, 20th Sept 2022
    • Beating Cancer Together, an event by ‘Stichting tegen Kanker’, 22th March 2022
    • Invited talk @ Kekulé series, Antwerp, 19th March 2022
  • Our lab developed Mendelcraft, a computer game for children on mendelian genetics
  • Born 11 Feb 1976 Heusden, Belgium
  • Married to Nele Bayen
  • Father of Juul, Achiel, and Korneel